Description

General Description

This program computes the average signal intensity maps for each condition for each individual subject. This program separately analyzes the data in each session indicated in the sessid file, then computes the average signal intensity maps for each condition. This average data can be further processed on an individual basis and/or can be used for group analyses. This also compute contrasts for testing hypotheses based on a GeneralLinearModel (GLM), including t and F statistics, significances of those statistics, and contrast effects sizes (ces).This is the new version of stxgrinder, implicit intensity normalization, better whitening

This program performs the first-level fMRI analysis. Specify the analysis configuration with -analysis. This is the configuration created with mkanalysis-sess. The analysis should already have contrasts created (by mkcontrast-sess), though you can add contrasts afterwards.

By default, selxavg3-sess will check the preprocessing to make sure that it has been run properly (turn off with -no-preproc).

By default, it will only run the analysis on data sets that actually need to be re-run based on the time stamps of the input data. To force a re-analysis run with -force or -overwrite.

This program will construct the design matrix for each run, fit the GLM, save regression coefficients, compute contrasts and significances of contrasts. The runs are combined together so the output is the average across runs (some would call this a "second-level" analysis).

This program requires matlab or octave.

The contrast to noise ratio is measured by the contrast value (gamma) divided by the residual stddev (rstd). This value is stored in cnr.nii.